From SIBiLS to Biodiversity PMC: Foundations for the One Health Library

By

Pasche, Emilie
Gobeill, Julien
Agosti, Donat
Penev, Lyubomir
Groom, Quentin
Georgiev, Teodor
Gaillac, Esteban
Flament, Alexandre
Caucheteur, Déborah
Michel, Pierre-André
Ruch, Patrick

Type

Article

Date of Publication

2023-8-28

Original Publication

Metabarcoding and metagenomics

Volume

7

Pages

1--3

Subjects

health sciences , information retrieval , Life sciences , literature services , text mining

Contributed by

Pensoft Publishers

Language

English

Published by

Bulgaria Pensoft Publishers 2017-

Identifiers

DOI: https://doi.org/10.3897/biss.7.111660

 

Abstract

One Health is an integrated, unifying approach that aims to sustainably balance and optimize the health of people, animals and ecosystems in compliance with the United Nations development goals (Dye 2022). However, premier life and health sciences digital libraries such as PubMed Central® tend to exclude or marginally include scientific publications about biodiversity. The exclusion is not specific to biodiversity but also includes related fields such as ecology and environmental sciences in general.<br> Leveraging the Swiss Institute of Bioinformatics Literature Services (SIBiLS), which are already mirroring MEDLINE (30+ million abstracts) and PubMed Central contents (5+ million full-text articles) from the the United States National institutes of Health's National Library of Medicine, as well as biodiversity-specific contents (e.g., Plazi's treatments and non-PMC articles from Pensoft), we will deliver a unique entry point to broadly search biodiversity publications, the so-called 'Biodiversity PMC'.<br> We will demonstrate how the new resource can help answer a wide range of biodiversity questions. The demo will provides examples of users' information requests and how the new resource can help support biodiversity sciences. We will review the different search modalities of the new service: language-model powered Question-Answering; SPARQL endpoint; search in supplementary data files; exploration of biotic interactions (biotXplorer); and how these different modalities are connected to navigate accross the different services. The demo will follow a 'Bring Your Own Questions' style and we encourage participants to identify a research question, as well as the corresponding factoid answers, and a traceable author statement as found in the literature (e.g., Where is Potamopyrgus antipodarum an invasive species? Answer: [Europe, North America]. Traceable author statement (source: Plazi TreatmentBank): 'Native to New Zealand and its adjacent islands and invasive in North America and Europe (Winterbourn 1970; Kerans et al. 2005).'*1